{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,7]],"date-time":"2025-10-07T08:39:27Z","timestamp":1759826367714},"reference-count":0,"publisher":"Oxford University Press (OUP)","issue":"13","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2004,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: The current paradigm for viewing metabolism, such as the Boehringer Chart or KEGG, takes a metabolite-centric view that is not ideal for genomics analysis because the same enzyme can appear in multiple places. Therefore an enzyme-centric view is also required.<\/jats:p>\n               <jats:p>Results: We have eliminated synonymous compound names taken from the ENZYME database ensuring that it is computationally parseable at all levels. Based on these results, we have written a software to create enzyme-centric graphs from reaction data, and we have created a second dataset with hub molecules removed, allowing a greater depth of information to be extracted from these graphs. We also present a detailed analysis of the various stages of the reconditioning process and the characteristics of the subgraphs resulting from the application of our software to the revised datasets.<\/jats:p>\n               <jats:p>Availability: Complete datasets and supplementary material may be downloaded from http:\/\/helix.ex.ac.uk\/metabolism. The software for the creation of enzyme-centric graphs from reaction data is available on request from the authors.<\/jats:p>","DOI":"10.1093\/bioinformatics\/bth199","type":"journal-article","created":{"date-parts":[[2004,4,13]],"date-time":"2004-04-13T00:34:51Z","timestamp":1081816491000},"page":"2050-2055","source":"Crossref","is-referenced-by-count":40,"title":["Constructing an enzyme-centric view of metabolism"],"prefix":"10.1093","volume":"20","author":[{"given":"A. B.","family":"Horne","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"T. C.","family":"Hodgman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"H. D.","family":"Spence","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"A. R.","family":"Dalby","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2004,4,8]]},"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/20\/13\/2050\/48905854\/bioinformatics_20_13_2050.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/20\/13\/2050\/48905854\/bioinformatics_20_13_2050.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,25]],"date-time":"2023-01-25T16:33:56Z","timestamp":1674664436000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/20\/13\/2050\/241978"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2004,4,8]]},"references-count":0,"journal-issue":{"issue":"13","published-print":{"date-parts":[[2004,9,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/bth199","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2004,9,1]]},"published":{"date-parts":[[2004,4,8]]}}}